lskatz at gmail.com
Thu Aug 11 13:47:49 UTC 2016
Hopefully you all can forgive me about posting about Bio::Phylo here but I
am not getting much help over there. I posted this on their site
I have figured out Robinson-Foulds (symmetric difference), so we can move
on from that. However, I have not figured out how to run the branch length
distance correctly yet such that it matches the Phylip treedist program.
The Bio::Phylo code looks correct but I believe, given its legacy and
expertise behind it, that treedist must be right. I also confirmed the
value in the R phangorn package using treedist(), and it agrees with Phylip.
Could anyone help me figure out how to get the correct branch length score
On Monday, August 8, 2016 at 6:42:21 PM UTC-4, Fields, Christopher J wrote:
> Cool, good to know. Thanks for replying back here!
> > A bioperl user directed me to Bio::Phylo which has the two functions
> that I
> > think I need: calc_symdiff() and calc_branch_length_distance().
> > --
> > View this message in context:
> > Sent from the Bioperl-L mailing list archive at Nabble.com.
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